Query 039779
Match_columns 471
No_of_seqs 219 out of 615
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 13:06:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039779.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039779hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd08037 LARP_1 La RNA-binding 100.0 7.3E-31 1.6E-35 214.6 4.9 73 327-399 1-73 (73)
2 cd08036 LARP_5 La RNA-binding 100.0 7.4E-31 1.6E-35 215.4 4.1 72 328-399 2-75 (75)
3 cd08038 LARP_2 La RNA-binding 100.0 1.1E-30 2.5E-35 213.5 5.2 73 327-399 1-73 (73)
4 cd08035 LARP_4 La RNA-binding 100.0 2.3E-30 5E-35 212.7 4.8 73 327-399 1-75 (75)
5 cd08034 LARP_1_2 La RNA-bindin 100.0 4E-30 8.8E-35 210.1 5.2 73 327-399 1-73 (73)
6 cd08032 LARP_7 La RNA-binding 100.0 4.4E-29 9.5E-34 208.1 6.3 76 324-399 3-82 (82)
7 cd08031 LARP_4_5_like La RNA-b 99.9 1.1E-28 2.4E-33 202.6 5.1 72 327-398 1-74 (75)
8 cd08033 LARP_6 La RNA-binding 99.9 1.3E-28 2.9E-33 203.0 5.5 72 328-399 2-77 (77)
9 smart00715 LA Domain in the RN 99.9 1.8E-28 3.8E-33 203.2 5.7 76 325-400 2-80 (80)
10 cd08028 LARP_3 La RNA-binding 99.9 4E-28 8.6E-33 202.2 6.1 76 324-399 2-82 (82)
11 cd08029 LA_like_fungal La-moti 99.9 1.4E-27 3E-32 196.4 5.1 71 328-399 2-76 (76)
12 cd07323 LAM LA motif RNA-bindi 99.9 3.4E-27 7.4E-32 193.1 5.3 72 328-399 2-75 (75)
13 cd08030 LA_like_plant La-motif 99.9 7E-27 1.5E-31 197.9 4.6 73 327-399 2-90 (90)
14 KOG2591 c-Mpl binding protein, 99.9 2.6E-26 5.6E-31 241.4 4.7 125 322-446 92-226 (684)
15 PF05383 La: La domain; Inter 99.9 3.1E-24 6.7E-29 169.6 2.8 58 330-387 1-61 (61)
16 KOG1855 Predicted RNA-binding 99.9 1.7E-22 3.7E-27 208.0 6.9 120 323-443 137-261 (484)
17 KOG2590 RNA-binding protein LA 99.8 7.2E-20 1.6E-24 191.1 17.0 79 327-410 301-380 (448)
18 KOG4213 RNA-binding protein La 99.5 1.3E-14 2.9E-19 136.9 4.0 77 324-400 11-93 (205)
19 COG5193 LHP1 La protein, small 99.5 8.6E-15 1.9E-19 150.7 1.5 82 328-409 272-377 (438)
20 COG5193 LHP1 La protein, small 98.6 9E-09 1.9E-13 106.9 1.7 73 330-402 75-161 (438)
21 KOG2590 RNA-binding protein LA 95.4 0.0029 6.4E-08 67.7 -1.2 89 321-409 92-185 (448)
22 KOG1924 RhoA GTPase effector D 92.5 0.48 1E-05 54.4 8.6 18 355-373 676-693 (1102)
23 PF01885 PTS_2-RNA: RNA 2'-pho 91.3 0.22 4.8E-06 47.6 3.9 51 352-402 26-83 (186)
24 PRK00819 RNA 2'-phosphotransfe 91.3 0.26 5.7E-06 47.1 4.3 53 352-404 27-81 (179)
25 PF09421 FRQ: Frequency clock 90.7 0.21 4.6E-06 58.0 3.7 50 353-402 473-525 (989)
26 KOG2278 RNA:NAD 2'-phosphotran 86.0 0.65 1.4E-05 45.2 3.0 41 349-389 25-65 (207)
27 COG1859 KptA RNA:NAD 2'-phosph 69.3 4.7 0.0001 40.0 3.3 52 353-404 54-107 (211)
28 PTZ00315 2'-phosphotransferase 50.8 12 0.00026 42.1 2.8 52 353-404 400-459 (582)
29 PF04963 Sigma54_CBD: Sigma-54 44.7 18 0.00038 34.6 2.6 59 322-385 13-74 (194)
30 KOG2253 U1 snRNP complex, subu 42.2 23 0.0005 40.3 3.4 59 336-396 44-102 (668)
31 KOG2236 Uncharacterized conser 34.8 2.4E+02 0.0053 31.4 9.4 7 46-52 173-179 (483)
32 KOG0132 RNA polymerase II C-te 33.6 1.9E+02 0.004 34.3 8.7 14 283-296 627-640 (894)
33 KOG4849 mRNA cleavage factor I 33.2 1.6E+02 0.0035 32.0 7.6 25 20-44 2-26 (498)
34 PRK12469 RNA polymerase factor 29.8 27 0.00058 38.4 1.4 67 324-391 123-192 (481)
35 TIGR02395 rpoN_sigma RNA polym 29.6 27 0.00059 37.6 1.4 64 323-391 75-141 (429)
36 TIGR01659 sex-lethal sex-letha 28.9 7E+02 0.015 26.2 13.2 61 375-437 157-217 (346)
37 PRK05932 RNA polymerase factor 24.5 34 0.00073 37.2 1.0 64 323-391 100-166 (455)
38 PRK02001 hypothetical protein; 20.8 7.9 0.00017 36.3 -4.1 77 326-408 10-90 (152)
No 1
>cd08037 LARP_1 La RNA-binding domain of La-related protein 1. This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=7.3e-31 Score=214.63 Aligned_cols=73 Identities=48% Similarity=0.837 Sum_probs=71.3
Q ss_pred HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCCeEec
Q 039779 327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRK 399 (471)
Q Consensus 327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gdkVRR 399 (471)
++.|++||||||||+||++|.|||++||+||||||++|++|||||+||.|+++|++||+.|++|||+++||||
T Consensus 1 ~~~I~~QvEyYFSd~NL~~D~fLr~~md~dG~Vpi~~ia~F~rmk~Lt~d~~~I~~Al~~S~~vev~~~~~r~ 73 (73)
T cd08037 1 KDYIKRQIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEIIDMKIRR 73 (73)
T ss_pred ChHHHHHHHHhccHhhhccCHHHHHHhccCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEecchhcC
Confidence 3689999999999999999999999999999999999999999999999999999999999999999999997
No 2
>cd08036 LARP_5 La RNA-binding domain of La-related protein 5. This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=7.4e-31 Score=215.36 Aligned_cols=72 Identities=32% Similarity=0.648 Sum_probs=69.1
Q ss_pred HHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEec
Q 039779 328 SRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIRK 399 (471)
Q Consensus 328 ~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVRR 399 (471)
+.|++||||||||+||++|.|||++||+||||||++||+|||||+||.|+++|++||+.|++|||+ |+|||.
T Consensus 2 e~i~kQvEyYFS~~NL~~D~fLr~~md~~g~Vpi~~ia~F~rik~Lt~D~~lI~~aL~~S~~vevse~g~kVRp 75 (75)
T cd08036 2 ELLKKTLEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQVDEKGEKVRP 75 (75)
T ss_pred hhhhcceeeeechhhccccHHHHHHhccCCCEehHHHhccHHHHHhcCCHHHHHHHHhhCCeEEECCCCCccCc
Confidence 679999999999999999999999999999999999999999999999999999999999999996 678873
No 3
>cd08038 LARP_2 La RNA-binding domain of La-related protein 2. This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=1.1e-30 Score=213.50 Aligned_cols=73 Identities=55% Similarity=0.878 Sum_probs=71.4
Q ss_pred HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCCeEec
Q 039779 327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRK 399 (471)
Q Consensus 327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gdkVRR 399 (471)
+++|++||||||||+||++|.|||++||.||||||++|++|||||+|+.|.++|++||+.|+.|||++++|||
T Consensus 1 ~e~I~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~ia~F~rmk~lt~d~~~I~~Al~~S~~ve~~~~~~r~ 73 (73)
T cd08038 1 KEYIKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQKIRR 73 (73)
T ss_pred ChHHHhhHHhhcchhhhccCHHHHHHhCCCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEeCCcccC
Confidence 3689999999999999999999999999999999999999999999999999999999999999999999996
No 4
>cd08035 LARP_4 La RNA-binding domain of La-related protein 4. This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=2.3e-30 Score=212.68 Aligned_cols=73 Identities=40% Similarity=0.697 Sum_probs=69.5
Q ss_pred HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEec
Q 039779 327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIRK 399 (471)
Q Consensus 327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVRR 399 (471)
+++|++||||||||+||++|.||+++||+||||||++|++|||||+||.|+++|++||+.|++|||+ |+|||.
T Consensus 1 ~e~i~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpi~~iasF~rik~lt~d~~~I~~AL~~S~~levsedg~kVRp 75 (75)
T cd08035 1 RECLKKQLEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPMVQVDETGEKVRP 75 (75)
T ss_pred ChHHHhhHHhhcCHhhcccCHHHHHhhCcCCCEehHHHhccHHHHHhcCCHHHHHHHHHcCCeEEEcCCCCccCc
Confidence 3689999999999999999999999999999999999999999999999999999999999999996 678874
No 5
>cd08034 LARP_1_2 La RNA-binding domain proteins similar to La-related proteins 1 and 2. This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.96 E-value=4e-30 Score=210.12 Aligned_cols=73 Identities=51% Similarity=0.849 Sum_probs=71.2
Q ss_pred HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCCeEec
Q 039779 327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRK 399 (471)
Q Consensus 327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gdkVRR 399 (471)
+++|++||||||||+||+||.||+++||.||||||++|++|+|||+|+.|.++|++||+.|+.|||+++|||+
T Consensus 1 ~~~i~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~lev~e~kvR~ 73 (73)
T cd08034 1 KEYIKKQIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVELVDEKVRC 73 (73)
T ss_pred ChHHHhhHHhhcCHhhhccCHHHHHHcCCCCCEeHHHHhccHHHHHHcCCHHHHHHHHHcCCeEEEecCeecC
Confidence 3689999999999999999999999999999999999999999999999999999999999999999999996
No 6
>cd08032 LARP_7 La RNA-binding domain of La-related protein 7. LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation.
Probab=99.95 E-value=4.4e-29 Score=208.09 Aligned_cols=76 Identities=42% Similarity=0.712 Sum_probs=72.5
Q ss_pred HHHHHHHHhhhhhhcCCCCCCcchHHHHhhc--CCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcC--CeEec
Q 039779 324 PQLHSRIVTQIDYYFSNENLVKDTFLRQNMD--DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG--DRIRK 399 (471)
Q Consensus 324 ~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD--~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~g--dkVRR 399 (471)
++|.++|++||||||||+||++|.||+++|+ .||||||++|++|||||+||.|.++|++||+.|+.|||++ ++|||
T Consensus 3 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VRR 82 (82)
T cd08032 3 KQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVVELNLEGTRIRR 82 (82)
T ss_pred HHHHHHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcCCHHHHHHHHhcCCEEEEcCCCCccCC
Confidence 5899999999999999999999999999997 7999999999999999999999999999999999999984 67886
No 7
>cd08031 LARP_4_5_like La RNA-binding domain of proteins similar to La-related proteins 4 and 5. This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.95 E-value=1.1e-28 Score=202.57 Aligned_cols=72 Identities=46% Similarity=0.798 Sum_probs=68.6
Q ss_pred HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEe
Q 039779 327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIR 398 (471)
Q Consensus 327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVR 398 (471)
+++|++||||||||+||+||.||+++|++||||||++|++|||||+||.|.++|++||+.|+.|||+ +++||
T Consensus 1 ~~~i~~QvEfYFSd~NL~~D~fL~~~m~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VR 74 (75)
T cd08031 1 KELLKRQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQVDEKGEKVR 74 (75)
T ss_pred ChHHHHHHHHHcCHhhhccCHHHHHHhCCCCCEEHHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCccC
Confidence 3689999999999999999999999999999999999999999999999999999999999999998 45676
No 8
>cd08033 LARP_6 La RNA-binding domain of La-related protein 6. This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.95 E-value=1.3e-28 Score=202.98 Aligned_cols=72 Identities=44% Similarity=0.826 Sum_probs=68.7
Q ss_pred HHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcC--CeEec
Q 039779 328 SRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG--DRIRK 399 (471)
Q Consensus 328 ~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~g--dkVRR 399 (471)
++|++||||||||+||++|.||+++| |.||||||++|++|||||+|+.|.++|++||+.|..|||++ ++|||
T Consensus 2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~d~~~I~~Al~~S~~lev~~d~~~VRR 77 (77)
T cd08033 2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSSKLVVSEDGKKVRR 77 (77)
T ss_pred hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcCCHHHHHHHHHhCCeEEEcCCCCccCC
Confidence 58999999999999999999999999 78999999999999999999999999999999999999985 57886
No 9
>smart00715 LA Domain in the RNA-binding Lupus La protein; unknown function.
Probab=99.95 E-value=1.8e-28 Score=203.19 Aligned_cols=76 Identities=49% Similarity=0.861 Sum_probs=72.4
Q ss_pred HHHHHHHhhhhhhcCCCCCCcchHHHHhhcC-CCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcC--CeEecC
Q 039779 325 QLHSRIVTQIDYYFSNENLVKDTFLRQNMDD-QGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG--DRIRKR 400 (471)
Q Consensus 325 ~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD~-dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~g--dkVRRR 400 (471)
+++++|++||||||||+||++|.||+++|+. ||||||++|++|+|||+|+.|.++|++||+.|..|||++ .+|||+
T Consensus 2 ~~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~~g~Vpl~~i~~F~r~k~l~~d~~~i~~Al~~S~~lel~~d~~~VRR~ 80 (80)
T smart00715 2 ELKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVSEDGLKVRRR 80 (80)
T ss_pred hHHHHHHHHHHHHcCHhhhhhCHHHHHHhccCCCCEEhHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCeeCcC
Confidence 6889999999999999999999999999997 999999999999999999999999999999999999984 578874
No 10
>cd08028 LARP_3 La RNA-binding domain of La-related protein 3. This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B).
Probab=99.94 E-value=4e-28 Score=202.25 Aligned_cols=76 Identities=37% Similarity=0.800 Sum_probs=71.5
Q ss_pred HHHHHHHHhhhhhhcCCCCCCcchHHHHhhc-CCCcEehhhhccccchhcccCCHHHHHHHHhhCC--cEEEcC--CeEe
Q 039779 324 PQLHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSST--VVEVQG--DRIR 398 (471)
Q Consensus 324 ~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD-~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~--~LEV~g--dkVR 398 (471)
++|+.+|++||||||||+||++|.||+++|+ +||||||++|++|||||+|+.|.++|++||+.|+ +|||++ .+||
T Consensus 2 ~~l~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~~~lev~~d~~~VR 81 (82)
T cd08028 2 DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSKSGLIEVSEDKTKIR 81 (82)
T ss_pred hHHHHHHHHHHHhhcCHhhhccCHHHHHHHhccCCCEEhHHHhCChhHHHhcCCHHHHHHHHHhCCCCEEEEcCCCCccC
Confidence 3689999999999999999999999999997 6999999999999999999999999999999999 999985 5677
Q ss_pred c
Q 039779 399 K 399 (471)
Q Consensus 399 R 399 (471)
|
T Consensus 82 R 82 (82)
T cd08028 82 R 82 (82)
T ss_pred C
Confidence 6
No 11
>cd08029 LA_like_fungal La-motif domain of fungal proteins similar to the La autoantigen. This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.94 E-value=1.4e-27 Score=196.39 Aligned_cols=71 Identities=37% Similarity=0.752 Sum_probs=67.0
Q ss_pred HHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEec
Q 039779 328 SRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIRK 399 (471)
Q Consensus 328 ~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVRR 399 (471)
++|++||||||||+||++|.|||++| +.||||||++|++|+|||+|+.+ ++|++||+.|+.|||+ +++|||
T Consensus 2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~~-~~i~~Al~~S~~lev~~d~~~VRR 76 (76)
T cd08029 2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPL-EAVVEALRESELLEVSEDGENVRR 76 (76)
T ss_pred hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCCH-HHHHHHHHhCCeEEEeCCCCcccC
Confidence 58999999999999999999999999 69999999999999999999976 9999999999999998 567887
No 12
>cd07323 LAM LA motif RNA-binding domain. This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.93 E-value=3.4e-27 Score=193.08 Aligned_cols=72 Identities=56% Similarity=1.000 Sum_probs=69.0
Q ss_pred HHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcC--CeEec
Q 039779 328 SRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG--DRIRK 399 (471)
Q Consensus 328 ~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~g--dkVRR 399 (471)
++|++||||||||+||++|.||+++|++||||||++|++|+|||+|+.|.++|++||+.|..|||++ .+|||
T Consensus 2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~g~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~s~~lel~~~~~~Vrr 75 (75)
T cd07323 2 EKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRDSSVVEVSEDGTKVRR 75 (75)
T ss_pred hHHHhhhHhccCHhhhCcCHHHHHhcCCCCCEEHHHHhCchHHHHHcCCHHHHHHHHHhCCeEEEeCCCCccCC
Confidence 5799999999999999999999999999999999999999999999999999999999999999985 57876
No 13
>cd08030 LA_like_plant La-motif domain of plant proteins similar to the La autoantigen. This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=99.93 E-value=7e-27 Score=197.91 Aligned_cols=73 Identities=32% Similarity=0.680 Sum_probs=67.7
Q ss_pred HHHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccC------------CHHHHHHHHhhCCcEEE
Q 039779 327 HSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTD------------NIQLILDALRSSTVVEV 392 (471)
Q Consensus 327 ~~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~------------D~~lI~eALr~S~~LEV 392 (471)
+++|++||||||||+||++|+||+++| +.||||||++|++|||||+|+. |+++|++||+.|.+|||
T Consensus 2 ~~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~V~i~~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I~~ALk~S~~lev 81 (90)
T cd08030 2 KEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPEDTLKAVAEALRTSTLLKV 81 (90)
T ss_pred hHHHHHHHHcccchhhcccCHHHHHHhccCCCCCEehHHHhcChHHHHHhhcccccccccchhHHHHHHHHHccCCEEEE
Confidence 689999999999999999999999999 7899999999999999999985 37899999999999999
Q ss_pred cC--CeEec
Q 039779 393 QG--DRIRK 399 (471)
Q Consensus 393 ~g--dkVRR 399 (471)
++ .+|||
T Consensus 82 seD~~~VRR 90 (90)
T cd08030 82 SEDGKRVGR 90 (90)
T ss_pred cCCCCccCC
Confidence 85 46776
No 14
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=99.92 E-value=2.6e-26 Score=241.37 Aligned_cols=125 Identities=26% Similarity=0.425 Sum_probs=109.7
Q ss_pred CcHHHHHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEec
Q 039779 322 PDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIRK 399 (471)
Q Consensus 322 ~d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVRR 399 (471)
++.+|++.|++|||||||.+||..|+||+++||+|.||||.+||.|++|++||+|++||+|+||+|+.|||| |+|||.
T Consensus 92 ls~~~kq~lk~qlEy~fSreNlssD~YL~sQMDSDqyVPI~tva~~~~i~klttDvdLI~Evlresp~VqvDekgekVrp 171 (684)
T KOG2591|consen 92 LSRDLKQLLKKQLEYYFSRENLSSDRYLISQMDSDQYVPINTVANFPEIMKLTTDVDLIVEVLRESPNVQVDEKGEKVRP 171 (684)
T ss_pred cchhHHHHHHHHHHHhhccccccchhhhhhhcccccccchhhhccchhhhhhccchHHHHHHHhcCCCceeccCcccccc
Confidence 445999999999999999999999999999999999999999999999999999999999999999999998 679998
Q ss_pred CCCCccccCC----CCCCCCCCCCCC----CCCCcHHHHhhcccccceecccccC
Q 039779 400 RNDWMRWIMP----PGKFSSLPSPQS----QGKSGIDMLSAQVQSISLDQKTLNH 446 (471)
Q Consensus 400 R~~w~kwvlp----~~~~~~v~gp~s----~~~~Sid~Lae~f~~Itle~~~~~~ 446 (471)
....+..||- ..+.+.|+++|. ++.++|+|.+++.|+||||.++|+|
T Consensus 172 ~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~nWyITfesd~DAQ 226 (684)
T KOG2591|consen 172 NHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDNWYITFESDTDAQ 226 (684)
T ss_pred CcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCceEEEeecchhHH
Confidence 8888877773 233344444431 2789999999999999999999874
No 15
>PF05383 La: La domain; InterPro: IPR006630 Human Ro ribonucleoproteins (RNPs) are composed of one of the four small Y RNAs and at least two proteins, Ro60 and La. The La protein is a 47 kDa polypeptide that frequently acts as an autoantigen in systemic lupus erythematosus and Sjogren's syndrome []. In the nucleus, La acts as a RNA polymerase III (RNAP III) transcription factor, while in the cytoplasm, La acts as a translation factor []. In the nucleus, La binds to the 3'UTR of nascent RNAP III transcripts to assist in folding and maturation []. In the cytoplasm, La recognises specific classes of mRNAs that contain a 5'-terminal oligopyrimidine (5'TOP) motif known to control protein synthesis []. The specific recognition is mediated by the N-terminal domain of La, which comprises a La motif and a RNA recognition motif (RRM). The La motif adopts an alpha/beta fold that comprises a winged-helix motif []. Homologous La domain-containing proteins have been identified in a wide range of organisms except Archaea, bacteria and viruses [].; PDB: 1S29_A 1YTY_B 2VOO_B 1S7A_A 2VOP_A 2VON_B 1ZH5_B 2VOD_A 2CQK_A.
Probab=99.89 E-value=3.1e-24 Score=169.64 Aligned_cols=58 Identities=55% Similarity=0.996 Sum_probs=53.4
Q ss_pred HHhhhhhhcCCCCCCcchHHHHhhcC--CCcEehhhhccccchhccc-CCHHHHHHHHhhC
Q 039779 330 IVTQIDYYFSNENLVKDTFLRQNMDD--QGWVPIRLIAGFNKVSLLT-DNIQLILDALRSS 387 (471)
Q Consensus 330 I~kQIEYYFSDeNL~kD~FLRs~MD~--dG~VPIs~IasFnRVK~LT-~D~~lI~eALr~S 387 (471)
|++||||||||+||++|.||+++|+. ||||||++|++|+|||+|+ .|.++|++||+.|
T Consensus 1 I~~QvEfYFSd~NL~~D~fL~~~~~~~~~g~Vpi~~i~~F~r~k~l~~~~~~~I~~al~~S 61 (61)
T PF05383_consen 1 IKKQVEFYFSDENLPRDKFLRSQMDSNPDGWVPISTILSFNRMKALTNTDIELIVDALRDS 61 (61)
T ss_dssp HHHHHHHHTSHHHHCC-HHHHHHHCTTTTTBEEHHHHTTSHHHHHH--S-HHHHHHHHHTS
T ss_pred ChhHHHHhcCHHHhCcCHHHHHHHHhcCCCcEeHHHHHchHHHHHHhcCCHHHHHHHHHcC
Confidence 78999999999999999999999986 9999999999999999999 8999999999987
No 16
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=99.86 E-value=1.7e-22 Score=208.04 Aligned_cols=120 Identities=31% Similarity=0.512 Sum_probs=101.4
Q ss_pred cHHHHHHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEe
Q 039779 323 DPQLHSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIR 398 (471)
Q Consensus 323 d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVR 398 (471)
-++|..+|++||||||||+||.+|.||.++| |++|||||++|++|||||+||.|+.+|.+|||.|.+|||+ |.|||
T Consensus 137 sedl~~kIv~QVEyyFSDenL~~d~fLlkhvrrnkeGyVpv~~vaSFKKvK~LTrd~~~va~ALr~S~kL~vseDgkKVr 216 (484)
T KOG1855|consen 137 SEDLAAKIVDQVEYYFSDENLLKDAFLLKHVRRNKEGYVPVKLVASFKKVKALTRDWKLVADALRKSSKLEVSEDGKKVR 216 (484)
T ss_pred cHHHHHHHHHHhheeeccccccchHHHHHHHhcCCCCceeeehhhhHHHHHHHhhhhHHHHHHHhhcceEEEccCCceee
Confidence 4689999999999999999999999999999 5899999999999999999999999999999999999997 56999
Q ss_pred cCCCCccccCCCCC-CCCCCCCCCCCCCcHHHHhhcccccceeccc
Q 039779 399 KRNDWMRWIMPPGK-FSSLPSPQSQGKSGIDMLSAQVQSISLDQKT 443 (471)
Q Consensus 399 RR~~w~kwvlp~~~-~~~v~gp~s~~~~Sid~Lae~f~~Itle~~~ 443 (471)
|..++..+..++.+ +..|++.. +.+-..+.|.+.|..++--..+
T Consensus 217 RisPlp~~~~eel~srtivaenL-P~Dh~~enl~kiFg~~G~IksI 261 (484)
T KOG1855|consen 217 RISPLPEFDEEELPSRTIVAENL-PLDHSYENLSKIFGTVGSIKSI 261 (484)
T ss_pred ecCCCCCccccccccceEEEecC-CcchHHHHHHHHhhcccceeee
Confidence 99988877776444 23334443 3556678899998877655433
No 17
>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]
Probab=99.83 E-value=7.2e-20 Score=191.10 Aligned_cols=79 Identities=42% Similarity=0.700 Sum_probs=71.9
Q ss_pred HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCCeEec-CCCCcc
Q 039779 327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRK-RNDWMR 405 (471)
Q Consensus 327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gdkVRR-R~~w~k 405 (471)
.+.|.+|||||||.||||+|.||+++| |+|.||++|+||+.|+.|+++|++||+.+.+||+.++.+|| +..|-.
T Consensus 301 ~~~~~~~ie~~FSeE~~~~d~~n~~k~-----~~l~~ia~F~r~ad~s~d~nli~~alr~s~ive~~~d~~~r~~~~~g~ 375 (448)
T KOG2590|consen 301 IAFIQEPIEFYFSEENLQRDRFNREKF-----VPLRVIAKFKRVADLSSDINLILAALRNSLIVEETGDLERRGGDRWGN 375 (448)
T ss_pred ccccccccccccchHHHhhhhhhhccc-----chhhhhhhhhhhhhcccCHHHHHHHHhhhhhhhccchhhhcccccccc
Confidence 356889999999999999999999865 66999999999999999999999999999999999998888 788888
Q ss_pred ccCCC
Q 039779 406 WIMPP 410 (471)
Q Consensus 406 wvlp~ 410 (471)
|++..
T Consensus 376 ~~~ra 380 (448)
T KOG2590|consen 376 HVSRA 380 (448)
T ss_pred eeccc
Confidence 88854
No 18
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=99.49 E-value=1.3e-14 Score=136.86 Aligned_cols=77 Identities=39% Similarity=0.833 Sum_probs=70.1
Q ss_pred HHHHHHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhC--CcEEEcCC--eE
Q 039779 324 PQLHSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSS--TVVEVQGD--RI 397 (471)
Q Consensus 324 ~~L~~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S--~~LEV~gd--kV 397 (471)
+.|.++|..||||||.|-||.||.|||.++ ..+|||||.+++.|||+..|++|.+.|++||+.| .++||++| ++
T Consensus 11 a~lE~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~lttD~~~Iv~al~ksk~~l~eisedk~k~ 90 (205)
T KOG4213|consen 11 AALEAKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTTDFNVIVEALSKSKAELMEISEDKTKI 90 (205)
T ss_pred hHHHHhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccccHHHHHHHHhhCHHhhhhhhhchhhh
Confidence 468889999999999999999999999999 3899999999999999999999999999999988 57889876 56
Q ss_pred ecC
Q 039779 398 RKR 400 (471)
Q Consensus 398 RRR 400 (471)
||.
T Consensus 91 rr~ 93 (205)
T KOG4213|consen 91 RRS 93 (205)
T ss_pred hcC
Confidence 664
No 19
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=99.47 E-value=8.6e-15 Score=150.73 Aligned_cols=82 Identities=32% Similarity=0.682 Sum_probs=71.1
Q ss_pred HHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhC------CcEE----------
Q 039779 328 SRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSS------TVVE---------- 391 (471)
Q Consensus 328 ~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S------~~LE---------- 391 (471)
..++.|||||||.+|||.|.|||++|+++||||+++|..|.|++.+..|.+||+.|||.+ ..+|
T Consensus 272 ~a~k~QiEyYFseenl~~d~~lrkk~~kaGf~plsfi~kf~Rn~Sf~gd~nLilaa~ke~v~n~a~~~~~~~~~~~~d~~ 351 (438)
T COG5193 272 MAKKEQIEYYFSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEVVQNKATNHLEIALGSIEDAQ 351 (438)
T ss_pred hhHHhhhHhhhhHHhhhhhhHHHhhhhhcccccHhhhhhhhhccccCCchhhhHHHHHHHhhhhhhhhhhhhhhccchhh
Confidence 456779999999999999999999999999999999999999999999999999999987 1111
Q ss_pred ---Ec----C-CeEecCCCCccccCC
Q 039779 392 ---VQ----G-DRIRKRNDWMRWIMP 409 (471)
Q Consensus 392 ---V~----g-dkVRRR~~w~kwvlp 409 (471)
.+ + ..++|++.|..|+++
T Consensus 352 ~~~~k~~sp~~~~f~rkk~wSewl~e 377 (438)
T COG5193 352 KNEAKDFSPGKKYFIRKKEWSEWLME 377 (438)
T ss_pred hccccccCcchhhhhhhhhhhhhhcc
Confidence 11 1 258889999999996
No 20
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=98.64 E-value=9e-09 Score=106.95 Aligned_cols=73 Identities=34% Similarity=0.646 Sum_probs=65.8
Q ss_pred HHhhhhhhcC-----CCCCCcchHHHHhhc----CCCcEehhhhccccchhcccCCHHHHHHHHhhC---CcEEEc--CC
Q 039779 330 IVTQIDYYFS-----NENLVKDTFLRQNMD----DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSS---TVVEVQ--GD 395 (471)
Q Consensus 330 I~kQIEYYFS-----DeNL~kD~FLRs~MD----~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S---~~LEV~--gd 395 (471)
+..|+||||| |.|+.+|+||+..-- .+|||||.++++|+|||.++..+..|..|++.| .++|++ |.
T Consensus 75 ~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~k~~gs~~~~v~~a~rks~~~rv~e~Sssgs 154 (438)
T COG5193 75 TLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGSPVSAVSGALRKSLDARVLEVSSSGS 154 (438)
T ss_pred cccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccccccCCchhhhhhhhhcCcccceeeeccccc
Confidence 8899999999 999999999997752 599999999999999999999999999999999 788886 66
Q ss_pred eEecCCC
Q 039779 396 RIRKRND 402 (471)
Q Consensus 396 kVRRR~~ 402 (471)
++||++.
T Consensus 155 n~~r~~k 161 (438)
T COG5193 155 NKNRTEK 161 (438)
T ss_pred cccccch
Confidence 7777653
No 21
>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]
Probab=95.38 E-value=0.0029 Score=67.69 Aligned_cols=89 Identities=21% Similarity=0.238 Sum_probs=80.3
Q ss_pred CCcHHHHHHHHh--hhhhhcCCCCCCcchHHHHhhcCCC---cEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCC
Q 039779 321 APDPQLHSRIVT--QIDYYFSNENLVKDTFLRQNMDDQG---WVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGD 395 (471)
Q Consensus 321 ~~d~~L~~~I~k--QIEYYFSDeNL~kD~FLRs~MD~dG---~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gd 395 (471)
++...|++.+.. +++|||+..++.+|.|++.+|+..| |.+++.+..|.++..++++..+++..++.|...+....
T Consensus 92 ~ps~~l~e~~~~~k~~s~~~~~~~~~~~~~~~~k~~~t~~~~~~~~S~~~~s~~~~~~s~n~~~~~~~~~~sa~~~~~~~ 171 (448)
T KOG2590|consen 92 VPSPPLKEYSKSDKKKSWPASKPFTPRDSFKGSKPTNTGNGTFLPISKISSSGPVSGGSANNSNIRGPLKGSASSNPVPN 171 (448)
T ss_pred cccccccccccccccccCcccCCCCccccccCCCccccCCCccCCCccccccccccCcccccccccCcCCCCCcCCcCcc
Confidence 344456666655 9999999999999999999999888 99999999999999999999999999999888888899
Q ss_pred eEecCCCCccccCC
Q 039779 396 RIRKRNDWMRWIMP 409 (471)
Q Consensus 396 kVRRR~~w~kwvlp 409 (471)
++|++..-++|...
T Consensus 172 ~~~~~~~~qr~~~~ 185 (448)
T KOG2590|consen 172 NSRAKPLNQRWPDS 185 (448)
T ss_pred ccccccccccCCCC
Confidence 99999999999885
No 22
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=92.46 E-value=0.48 Score=54.38 Aligned_cols=18 Identities=22% Similarity=0.038 Sum_probs=9.2
Q ss_pred CCCcEehhhhccccchhcc
Q 039779 355 DQGWVPIRLIAGFNKVSLL 373 (471)
Q Consensus 355 ~dG~VPIs~IasFnRVK~L 373 (471)
.+|-|.-+++ .-++++.|
T Consensus 676 ~e~~eekkt~-~kKk~kel 693 (1102)
T KOG1924|consen 676 QEGGEEKKTG-TKKKVKEL 693 (1102)
T ss_pred ccccccccch-hhhhhhhh
Confidence 3455655555 34555544
No 23
>PF01885 PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA family; InterPro: IPR002745 The final step of tRNA splicing in Saccharomyces cerevisiae (Baker's yeast) requires 2'-phosphotransferase (Tpt1) to transfer the 2'-phosphate from ligated tRNA to NAD, producing mature tRNA and ADP ribose-1' '-2' '-cyclic phosphate. Yeast and Mus musculus (Mouse) Tpt1 protein and bacterial KptA protein can catalyze the conversion of the generated intermediate to both product and the original substrate, these enzymes likely use the same reaction mechanism. Step 1 of this reaction is strikingly similar to the ADP-ribosylation of proteins catalyzed by a number of bacterial toxins. KptA, a functional Tpt1 protein homologue from Escherichia coli is strikingly similar to yeast Tpt1 in its kinetic parameters, although E. coli is not known to have a 2'-phosphorylated RNA substrate [,].; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1WFX_A.
Probab=91.30 E-value=0.22 Score=47.56 Aligned_cols=51 Identities=24% Similarity=0.308 Sum_probs=35.9
Q ss_pred hhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCc--EEEc-----CCeEecCCC
Q 039779 352 NMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV--VEVQ-----GDRIRKRND 402 (471)
Q Consensus 352 ~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~--LEV~-----gdkVRRR~~ 402 (471)
.||.||||.|+.|+...+++.+..+.+.|.++++..++ .|+. +.+||.+..
T Consensus 26 ~~d~~G~v~v~dLL~~~~~~~~~~t~~~i~~vV~~~~K~Rfel~~~~~~~~~IRA~qG 83 (186)
T PF01885_consen 26 VMDPDGWVSVDDLLRALRFKGLWVTEEDIREVVETDDKQRFELRYEDPGGWRIRANQG 83 (186)
T ss_dssp ---TT--EEHHHHHHHHHHT-TT--HHHHHHHHHH-SS--EEEE-----TTEEEESS-
T ss_pred ccCCCCCEeHHHHHHHHHHcCCCCCHHHHHHHHhhCCCCCeeEEcccccCceEEECCC
Confidence 37899999999999999999887789999999998864 5666 789998864
No 24
>PRK00819 RNA 2'-phosphotransferase; Reviewed
Probab=91.29 E-value=0.26 Score=47.09 Aligned_cols=53 Identities=26% Similarity=0.418 Sum_probs=42.4
Q ss_pred hhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCc--EEEcCCeEecCCCCc
Q 039779 352 NMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV--VEVQGDRIRKRNDWM 404 (471)
Q Consensus 352 ~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~--LEV~gdkVRRR~~w~ 404 (471)
.||.+|||+|+.|+...+.+....+.+.|.+++++.++ .|+++++||.+....
T Consensus 27 ~ld~~G~v~v~~Ll~~~~~~~~~~t~~~l~~vV~~d~K~Rf~l~~~~IRA~qGHS 81 (179)
T PRK00819 27 TLDEEGWVDIDALIEALAKAYKWVTRELLEAVVESDDKGRFEISGDRIRARQGHS 81 (179)
T ss_pred ccCCCCCEEHHHHHHHHHHccCCCCHHHHHHHHHcCCCcceEecCceEEeccCcC
Confidence 37899999999999877654334578999999998865 567899999987654
No 25
>PF09421 FRQ: Frequency clock protein; InterPro: IPR018554 The frequency clock protein, is the central component of the frq-based circadian negative feedback loop, regulates various aspects of the circadian clock in Neurospora crassa []. This protein has been shown to interact with itself via a coiled-coil [].
Probab=90.72 E-value=0.21 Score=58.03 Aligned_cols=50 Identities=24% Similarity=0.506 Sum_probs=44.3
Q ss_pred hcCCCcEehhhhccccchhcccCCHHHHHHHHhh-CCcEEEc--CCeEecCCC
Q 039779 353 MDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRS-STVVEVQ--GDRIRKRND 402 (471)
Q Consensus 353 MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~-S~~LEV~--gdkVRRR~~ 402 (471)
.|.+|||-|.|||+.-.|--|..+.+.|+.||.+ |.++||. |.|||=|-.
T Consensus 473 pDaeGWVYLNLL~NmAQLHiiNVTPdFVRsAV~E~StKfQLSpDGrKIRWRGG 525 (989)
T PF09421_consen 473 PDAEGWVYLNLLCNMAQLHIINVTPDFVRSAVSEKSTKFQLSPDGRKIRWRGG 525 (989)
T ss_pred cccccceehHHHHHHHHHHhhccCHHHHHHHHHhcccceeeCCCCCeeeecCC
Confidence 4789999999999999999999999999999965 8999995 889996653
No 26
>KOG2278 consensus RNA:NAD 2'-phosphotransferase TPT1 [Translation, ribosomal structure and biogenesis]
Probab=86.03 E-value=0.65 Score=45.17 Aligned_cols=41 Identities=24% Similarity=0.381 Sum_probs=35.8
Q ss_pred HHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCc
Q 039779 349 LRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV 389 (471)
Q Consensus 349 LRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~ 389 (471)
++=+|+.||||+|..|++.|+.|.....+++|.++++.-.+
T Consensus 25 ~~L~m~~dGfvpv~~lL~lnq~r~~~~t~ddi~riVk~ndK 65 (207)
T KOG2278|consen 25 LRLNMRGDGFVPVEDLLNLNQFRGANHTIDDIRRIVKRNDK 65 (207)
T ss_pred hcccccCCCceEHHHHhccchhcccCCcHHHHHHHHhcccc
Confidence 34457899999999999999999998889999999987653
No 27
>COG1859 KptA RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]
Probab=69.31 E-value=4.7 Score=40.02 Aligned_cols=52 Identities=19% Similarity=0.284 Sum_probs=42.6
Q ss_pred hcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCc--EEEcCCeEecCCCCc
Q 039779 353 MDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV--VEVQGDRIRKRNDWM 404 (471)
Q Consensus 353 MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~--LEV~gdkVRRR~~w~ 404 (471)
||.+||+.|+-|+.-.|-+---.|.++|..+++..++ .|+.+.+||.+..|.
T Consensus 54 lD~~Gwa~i~~l~~~~~k~~~~~~~~~l~~iV~~d~K~Rf~l~~~~IRA~yGHS 107 (211)
T COG1859 54 LDEEGWADIDELLEGLRKAGRWLTRELLLAVVATDDKGRFELKEGKIRARYGHS 107 (211)
T ss_pred eccccchhHHHHHHHHHhhccCCCHHHHHHHHhcCCCceeEecccceeeccCcc
Confidence 6899999999888775554333478999999998875 778899999999988
No 28
>PTZ00315 2'-phosphotransferase; Provisional
Probab=50.79 E-value=12 Score=42.11 Aligned_cols=52 Identities=17% Similarity=0.169 Sum_probs=41.7
Q ss_pred hcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCc--EEEc-----C-CeEecCCCCc
Q 039779 353 MDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV--VEVQ-----G-DRIRKRNDWM 404 (471)
Q Consensus 353 MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~--LEV~-----g-dkVRRR~~w~ 404 (471)
||.+|||.|+.|+.-.+.+....+.+.|.+++++.++ .|+. + .+||.+....
T Consensus 400 ld~~Gwv~vd~LL~~~~~~~~~~t~e~i~~VV~~ndK~RF~l~~~~~~~~~~IRA~QGHS 459 (582)
T PTZ00315 400 ITSNGYVLLDDILRQPPMRNDPVSVQDVARVVRDSDKQRFKLAYGAADGRLYIRANQGHS 459 (582)
T ss_pred cCCCCCEEHHHHHHHHHhcCCCCCHHHHHHHHHcCCCCceEEeccCCCCceEEEeccCcc
Confidence 7899999999999988887766689999999998864 4554 2 3699887654
No 29
>PF04963 Sigma54_CBD: Sigma-54 factor, core binding domain; InterPro: IPR007046 This domain makes a direct interaction with the core RNA polymerase, to form an enhancer dependent holoenzyme []. The centre of this domain contains a very weak similarity to a helix-turn-helix motif, which may represent a DNA binding domain.; GO: 0003677 DNA binding, 0006352 transcription initiation, DNA-dependent; PDB: 2K9L_A 2K9M_A.
Probab=44.68 E-value=18 Score=34.59 Aligned_cols=59 Identities=22% Similarity=0.305 Sum_probs=31.2
Q ss_pred CcHHHHHHHHhhhhhhcCCCCCC-cchHHHHhhcCCCcEe--hhhhccccchhcccCCHHHHHHHHh
Q 039779 322 PDPQLHSRIVTQIDYYFSNENLV-KDTFLRQNMDDQGWVP--IRLIAGFNKVSLLTDNIQLILDALR 385 (471)
Q Consensus 322 ~d~~L~~~I~kQIEYYFSDeNL~-kD~FLRs~MD~dG~VP--Is~IasFnRVK~LT~D~~lI~eALr 385 (471)
..+.|.+.|..||...+.++... ==.||...+|++||+. +..|+ +.+..+.+.|.++|+
T Consensus 13 ~~~sL~e~L~~Ql~~~~l~~~~~~ia~~lI~~LD~~GyL~~~~~eia-----~~l~~~~~~v~~~l~ 74 (194)
T PF04963_consen 13 AEESLYEHLLEQLNLSPLSEEEREIAEYLIDNLDDDGYLTESLEEIA-----EELGVSEEEVEKALE 74 (194)
T ss_dssp ------HHHHHHHHHH---TCCHHHHHHHCCCBTTTSTCSS-HHHHH-----HHCTS-HHHHHHHHH
T ss_pred cccCHHHHHHHHHcCcccCHHHHHHHHHHHHcCCCCCccCCCHHHHH-----HHhCCCHHHHHHHHH
Confidence 45679999999999876544432 2467777889999975 44443 223344444444444
No 30
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=42.19 E-value=23 Score=40.34 Aligned_cols=59 Identities=20% Similarity=0.227 Sum_probs=37.8
Q ss_pred hhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCCe
Q 039779 336 YYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDR 396 (471)
Q Consensus 336 YYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gdk 396 (471)
||=--.-++-+.|+++.+..-|||+...++.|..+--+ +...++.|++....+.+++++
T Consensus 44 fv~~~~~~~s~~~~~~il~~~g~v~s~kr~~fgf~~f~--~~~~~~ra~r~~t~~~~~~~k 102 (668)
T KOG2253|consen 44 FVGNISYLVSQEFWKSILAKSGFVPSWKRDKFGFCEFL--KHIGDLRASRLLTELNIDDQK 102 (668)
T ss_pred EecchhhhhhHHHHHHHHhhCCcchhhhhhhhcccchh--hHHHHHHHHHHhcccCCCcch
Confidence 33333346678899999999999998888776554332 234445555555556665544
No 31
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.85 E-value=2.4e+02 Score=31.43 Aligned_cols=7 Identities=0% Similarity=-0.045 Sum_probs=3.6
Q ss_pred CCCCCCC
Q 039779 46 KRPPWNR 52 (471)
Q Consensus 46 kkp~W~k 52 (471)
+...|++
T Consensus 173 e~~s~~~ 179 (483)
T KOG2236|consen 173 EDRSPSK 179 (483)
T ss_pred ccccccc
Confidence 4455555
No 32
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=33.65 E-value=1.9e+02 Score=34.28 Aligned_cols=14 Identities=14% Similarity=0.532 Sum_probs=6.5
Q ss_pred CCCCCCCCCccccc
Q 039779 283 IGFPEFASPVYYVA 296 (471)
Q Consensus 283 ~~fp~~a~~~yy~P 296 (471)
.+|+.+..+-|++|
T Consensus 627 Pg~np~~pPpg~~p 640 (894)
T KOG0132|consen 627 PGYNPYPPPPGFMP 640 (894)
T ss_pred CCCCCCCCCcccCC
Confidence 46654444444443
No 33
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=33.17 E-value=1.6e+02 Score=32.04 Aligned_cols=25 Identities=24% Similarity=0.090 Sum_probs=14.4
Q ss_pred HHHHHHHhhccccccCCcCCCCCCC
Q 039779 20 IELAAAAAAAADEDNGAECGNGNAG 44 (471)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~na~ 44 (471)
||+--|++.-++.|..|+--..||+
T Consensus 2 Ae~~e~~~l~~~~~q~~~~~~E~~~ 26 (498)
T KOG4849|consen 2 AELDEAALLGDGNEQHDGPIDENAL 26 (498)
T ss_pred cchhhhhhhcCCcccccCchhhhcc
Confidence 3455555666566666655445666
No 34
>PRK12469 RNA polymerase factor sigma-54; Provisional
Probab=29.75 E-value=27 Score=38.44 Aligned_cols=67 Identities=22% Similarity=0.295 Sum_probs=45.9
Q ss_pred HHHHHHHHhhhhhhcCCCCCC-cchHHHHhhcCCCcE--ehhhhccccchhcccCCHHHHHHHHhhCCcEE
Q 039779 324 PQLHSRIVTQIDYYFSNENLV-KDTFLRQNMDDQGWV--PIRLIAGFNKVSLLTDNIQLILDALRSSTVVE 391 (471)
Q Consensus 324 ~~L~~~I~kQIEYYFSDeNL~-kD~FLRs~MD~dG~V--PIs~IasFnRVK~LT~D~~lI~eALr~S~~LE 391 (471)
..|.+.|..||..++-++.-. ==.||...+|++||+ ++..|+.-.. +.|..+.+.|.+||+.-..+|
T Consensus 123 ~sL~~~L~~Ql~~~~~~~~~~~ia~~lI~~LD~~GyL~~~~~eia~~~~-~~l~~~~~~ve~vL~~iQ~le 192 (481)
T PRK12469 123 PTLHEHLHDALRLYFLTERDREIARTIIDALDDDGYLRQDLSELAEAAD-PELGLSEQELEVALRLVQSLD 192 (481)
T ss_pred CCHHHHHHHHHhccCCCHHHHHHHHHHHhhCCCCCCCCCCHHHHHhccc-cccCCCHHHHHHHHHHHhcCC
Confidence 368999999999987666432 235888999999997 5666654322 224456777777776655454
No 35
>TIGR02395 rpoN_sigma RNA polymerase sigma-54 factor. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called sigma-54, or RpoN (unrelated to sigma 70-type factors such as RpoD/SigA). RpoN is responsible for enhancer-dependent transcription, and its presence characteristically is associated with varied panels of activators, most of which are enhancer-binding proteins (but see Brahmachary, et al., PubMed:15231786). RpoN may be responsible for transcription of nitrogen fixation genes, flagellins, pilins, etc., and synonyms for the gene symbol rpoN, such as ntrA, reflect these observations
Probab=29.57 E-value=27 Score=37.62 Aligned_cols=64 Identities=16% Similarity=0.264 Sum_probs=42.4
Q ss_pred cHHHHHHHHhhhhhhcCC-CCCCcchHHHHhhcCCCcEe--hhhhccccchhcccCCHHHHHHHHhhCCcEE
Q 039779 323 DPQLHSRIVTQIDYYFSN-ENLVKDTFLRQNMDDQGWVP--IRLIAGFNKVSLLTDNIQLILDALRSSTVVE 391 (471)
Q Consensus 323 d~~L~~~I~kQIEYYFSD-eNL~kD~FLRs~MD~dG~VP--Is~IasFnRVK~LT~D~~lI~eALr~S~~LE 391 (471)
...|.+.|..||.+++-+ .-..==.||...+|++||+. +..|+.- |..+.+.|.+||..-..||
T Consensus 75 ~~sL~e~L~~Ql~~~~~~~~~~~ia~~iI~~LD~~GyL~~~~~eia~~-----l~~~~~~ve~~l~~iq~le 141 (429)
T TIGR02395 75 TESLFEHLLEQLDLQLFTERDRKIALYIIDNLDEDGYLEIDLEEIADE-----LEVSEEEVEKVLELIQRLD 141 (429)
T ss_pred CCCHHHHHHHHHhccCCCHHHHHHHHHHHHhCCCCCCCCCCHHHHHHH-----cCCCHHHHHHHHHHHhcCC
Confidence 447899999999998544 33333578889999999985 5555432 2345666666666544344
No 36
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=28.93 E-value=7e+02 Score=26.22 Aligned_cols=61 Identities=8% Similarity=-0.081 Sum_probs=32.5
Q ss_pred CCHHHHHHHHhhCCcEEEcCCeEecCCCCccccCCCCCCCCCCCCCCCCCCcHHHHhhccccc
Q 039779 375 DNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIMPPGKFSSLPSPQSQGKSGIDMLSAQVQSI 437 (471)
Q Consensus 375 ~D~~lI~eALr~S~~LEV~gdkVRRR~~w~kwvlp~~~~~~v~gp~s~~~~Sid~Lae~f~~I 437 (471)
.|.+...+||+.-.-++|.+.+|+....-............+..+ ...++-+.|.+.|..+
T Consensus 157 ~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~~~~~~~lfV~nL--p~~vtee~L~~~F~~f 217 (346)
T TIGR01659 157 GSEADSQRAIKNLNGITVRNKRLKVSYARPGGESIKDTNLYVTNL--PRTITDDQLDTIFGKY 217 (346)
T ss_pred ccHHHHHHHHHHcCCCccCCceeeeecccccccccccceeEEeCC--CCcccHHHHHHHHHhc
Confidence 477888888887777777777666431100000001111122222 2456777788777654
No 37
>PRK05932 RNA polymerase factor sigma-54; Reviewed
Probab=24.50 E-value=34 Score=37.22 Aligned_cols=64 Identities=19% Similarity=0.282 Sum_probs=42.7
Q ss_pred cHHHHHHHHhhhhhhcCCCCCC-cchHHHHhhcCCCcE--ehhhhccccchhcccCCHHHHHHHHhhCCcEE
Q 039779 323 DPQLHSRIVTQIDYYFSNENLV-KDTFLRQNMDDQGWV--PIRLIAGFNKVSLLTDNIQLILDALRSSTVVE 391 (471)
Q Consensus 323 d~~L~~~I~kQIEYYFSDeNL~-kD~FLRs~MD~dG~V--PIs~IasFnRVK~LT~D~~lI~eALr~S~~LE 391 (471)
...|.+.|..||.+++-++... ==.||...+|++||+ ++..|+.- |..+.+.|.+||+.-..||
T Consensus 100 ~~sL~e~L~~Ql~~~~l~~~~~~ia~~iI~~LD~~GyL~~~~~eia~~-----l~~~~~~v~~~l~~lQ~le 166 (455)
T PRK05932 100 TESLQDHLLEQIELTPFSETDRAIATYIIDALDDEGYLTEDLEEIAES-----LGVELDEVEAVLKRIQSFD 166 (455)
T ss_pred CCCHHHHHHHHHcccCCCHHHHHHHHHHHHhCCCCCCCCCCHHHHHHH-----cCCCHHHHHHHHHHHhcCC
Confidence 3468999999999985544433 346788889999998 55665432 2345666666666544444
No 38
>PRK02001 hypothetical protein; Validated
Probab=20.77 E-value=7.9 Score=36.34 Aligned_cols=77 Identities=13% Similarity=0.120 Sum_probs=53.8
Q ss_pred HHHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc----CCeEecCC
Q 039779 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ----GDRIRKRN 401 (471)
Q Consensus 326 L~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~----gdkVRRR~ 401 (471)
+.+.+...+.|++=|-.+.+..+||=.+|.++-|.|...+.+.|--. .++++....=.|||+ +..+++..
T Consensus 10 ~~e~~~~~~g~eLvdv~~~~~~~lrV~ID~~~Gv~lddC~~vSr~is------~~LD~~d~~Y~LEVSSPGldRpL~~~~ 83 (152)
T PRK02001 10 LVEELLEGPELFLVDLTISPDNKIVVEIDGDEGVWIEDCVELSRAIE------HNLDREEEDFELEVGSAGLTSPLKVPR 83 (152)
T ss_pred HHHhhhhhcCcEEEEEEEEcCCEEEEEEECCCCCCHHHHHHHHHHHH------HHhcCCCCCeEEEEeCCCCCCcCCCHH
Confidence 45677888899998888888888888889887799999888877432 223322345579997 33466655
Q ss_pred CCccccC
Q 039779 402 DWMRWIM 408 (471)
Q Consensus 402 ~w~kwvl 408 (471)
.|.+++=
T Consensus 84 ~f~r~~G 90 (152)
T PRK02001 84 QYKKNIG 90 (152)
T ss_pred HHHHhCC
Confidence 6665544
Done!